genome.fa.s186.2.7.7.80.10.50.1000.4.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Scaffold186
Parameters: 2 7 7 80 10 50 1000
Length:  1043505

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 709 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
457874--458168	156	1.9	157	81	6	366	39	19	16	24	1.91
460269--460322	20	2.7	20	88	2	72	38	5	14	40	1.70
460288--460340	20	2.6	21	87	3	72	39	5	16	37	1.73
462035--462111	20	3.8	20	73	0	73	31	14	11	42	1.81
461992--462159	91	1.8	91	90	0	273	29	17	11	41	1.84
462055--462206	71	2.1	73	90	2	236	26	19	13	40	1.88
461992--462182	91	2.1	91	87	1	267	29	17	10	41	1.84
462055--462232	71	2.5	71	86	1	212	27	18	12	41	1.86
473912--473969	20	2.8	20	78	19	66	79	12	1	6	1.00
473900--473969	25	2.8	25	74	6	72	77	14	2	5	1.07
475245--475779	32	17.9	32	85	5	383	28	28	18	23	1.98
475193--475766	28	19.4	29	83	7	472	29	29	17	23	1.97
475193--475792	62	10.1	57	82	9	435	29	28	18	23	1.97
475843--475950	49	2.4	43	79	18	137	18	32	19	29	1.96
475860--475968	49	2.2	49	91	0	182	20	31	18	30	1.96
480681--480711	3	10.3	3	92	0	53	35	0	35	29	1.58
487178--487241	32	2.0	32	93	0	110	45	10	17	26	1.81
487663--487719	19	2.9	19	89	2	87	29	17	15	36	1.91
488515--489000	152	3.2	151	82	4	557	46	9	10	33	1.71
495581--495606	13	2.0	13	100	0	52	30	15	15	38	1.88
497186--497222	13	2.8	13	95	0	65	37	16	16	29	1.90
506689--506729	21	2.0	21	85	9	57	39	12	9	39	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
506766--506822	21	2.8	20	81	5	69	40	15	14	29	1.87
506810--506946	53	2.6	53	94	1	238	37	18	17	26	1.93
507012--507079	14	5.2	14	77	15	74	27	25	5	41	1.78
507025--507074	24	2.1	24	92	0	82	28	26	6	40	1.79
507012--507097	38	2.3	38	83	2	102	30	23	6	39	1.81
507108--507146	13	3.0	13	84	0	60	33	17	12	35	1.88
510002--510315	80	4.0	80	84	3	377	30	8	30	29	1.87
512107--512173	37	1.9	35	88	11	102	29	25	11	32	1.92
512652--512677	13	2.0	13	100	0	52	30	23	15	30	1.95
512843--512913	20	3.5	20	77	11	74	29	12	16	40	1.86
512953--512993	21	2.0	21	85	9	57	39	9	12	39	1.76
514628--514652	13	1.9	13	100	0	50	32	16	16	36	1.90
517765--517831	37	1.9	35	88	11	102	29	25	11	32	1.92
518310--518335	13	2.0	13	100	0	52	30	23	15	30	1.95
518501--518571	20	3.5	20	77	11	74	29	12	16	40	1.86
518611--518651	21	2.0	21	85	9	57	39	9	12	39	1.76
521219--521281	32	1.9	33	90	3	101	28	17	14	39	1.89
521333--521385	20	2.7	19	88	11	72	37	13	18	30	1.89
524380--524404	13	1.9	13	100	0	50	36	16	16	32	1.90
524357--524424	33	2.1	33	88	2	102	32	13	19	35	1.90
524456--524507	20	2.6	20	84	0	68	30	13	13	42	1.83
524495--524523	13	2.2	13	100	0	58	37	13	17	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
524509--524559	20	2.5	20	87	0	66	33	15	15	35	1.90
524508--524801	91	3.2	91	63	20	235	29	17	15	37	1.91
524412--524803	189	2.1	189	99	0	777	30	17	14	36	1.91
524684--524712	13	2.2	13	100	0	58	37	13	17	31	1.89
524698--524748	20	2.5	20	87	0	66	33	15	15	35	1.90
528839--528882	20	2.2	20	100	0	88	40	15	18	25	1.90
528918--528945	13	2.2	13	100	0	56	28	14	17	39	1.89
531500--531563	33	1.9	32	87	12	94	37	15	15	31	1.89
533729--533776	21	2.3	22	82	13	66	43	0	14	41	1.45
533729--533778	20	2.4	21	87	9	68	44	0	16	40	1.47
536320--536367	21	2.3	20	82	6	60	43	16	16	22	1.87
537373--537427	13	3.8	13	75	25	56	32	16	14	36	1.89
537352--537449	32	3.0	31	91	4	151	36	14	12	36	1.83
537354--537416	19	3.6	19	74	24	66	36	15	12	34	1.86
540279--540333	20	2.7	20	85	2	74	36	14	10	38	1.81
542158--542550	155	2.5	155	79	8	404	38	20	18	23	1.93
542266--542598	155	2.1	156	81	7	383	38	18	19	24	1.93
543025--543083	32	1.9	30	83	13	75	59	10	10	20	1.58
543344--543369	13	2.0	13	100	0	52	30	15	15	38	1.88
543323--543387	32	2.0	33	90	6	105	29	12	13	44	1.81
543323--543387	19	3.6	19	71	26	61	29	12	13	44	1.81
545924--545958	13	2.7	13	95	0	61	34	17	17	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
548038--548068	15	2.1	15	93	0	53	12	22	16	48	1.80
551797--551855	32	1.9	30	83	13	75	59	10	10	20	1.58
552043--552080	20	1.9	20	94	0	67	34	10	13	42	1.78
552136--552161	13	2.0	13	100	0	52	30	15	15	38	1.88
552115--552179	32	2.0	33	90	6	105	29	12	13	44	1.81
552115--552179	19	3.6	19	71	26	61	29	12	13	44	1.81
552632--553236	154	3.9	152	74	7	486	36	20	17	24	1.94
554818--554860	13	3.5	13	84	6	54	2	13	0	83	0.74
554818--554867	25	2.1	23	92	7	82	2	18	0	80	0.82
554818--554863	12	3.8	12	86	8	67	2	17	0	80	0.81
555496--556311	166	4.9	165	81	6	834	53	7	11	27	1.63
555496--556311	331	2.5	328	82	7	963	53	7	11	27	1.63
556190--556224	18	1.9	18	88	0	52	48	5	14	31	1.67
557392--557639	82	3.0	82	72	8	191	44	13	23	18	1.85
557725--557967	43	5.7	43	74	1	209	36	17	26	20	1.94
557729--557967	86	2.8	86	80	3	248	36	17	26	19	1.94
557994--558308	126	2.5	126	80	4	339	36	18	27	17	1.93
558122--558440	126	2.5	124	78	8	306	34	18	29	17	1.94
557994--558438	42	10.6	41	72	10	258	35	17	29	17	1.93
558526--558853	44	7.6	43	71	11	204	39	16	24	20	1.92
558526--558884	88	4.1	89	81	9	386	38	15	25	20	1.91
558691--558884	44	4.4	43	71	8	140	38	13	26	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558871--558979	48	2.3	49	91	3	177	41	21	20	17	1.91
558951--559026	36	2.1	36	85	4	100	46	10	22	21	1.81
559230--559428	89	2.2	89	81	7	224	30	13	27	28	1.94
561452--561480	14	2.1	14	100	0	58	13	27	13	44	1.82
564120--564175	19	2.9	19	83	2	76	32	17	12	37	1.88
575861--575901	20	2.0	22	90	9	68	39	21	14	24	1.91
575908--575955	20	2.5	20	82	3	62	27	18	16	37	1.92
577546--578648	155	7.2	153	75	8	808	38	21	16	23	1.93
577556--578648	460	2.4	460	80	5	1175	38	21	16	23	1.93
577525--578599	311	3.5	300	76	7	871	38	20	16	23	1.93
580228--580266	10	3.7	10	80	12	51	7	15	0	76	0.99
581257--581292	19	1.9	19	88	5	56	52	0	11	36	1.37
580910--581712	162	4.9	163	79	7	680	52	8	10	27	1.65
582184--582223	21	1.9	21	89	0	62	57	17	0	25	1.40
583040--583100	31	2.0	31	83	6	79	19	9	21	49	1.77
588079--588112	14	2.4	14	95	0	59	67	5	14	11	1.39
590320--590914	79	7.6	78	81	5	608	34	14	24	27	1.93
590316--590914	237	2.5	232	82	7	688	34	14	23	27	1.93
592078--592141	28	2.3	28	83	5	76	29	20	29	20	1.97
592129--592299	52	3.3	51	80	3	198	32	12	25	29	1.93
592282--592357	27	2.8	27	86	6	100	23	21	31	23	1.98
592021--592468	212	2.1	210	85	4	589	32	13	25	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
592349--592448	51	1.9	53	85	6	141	36	11	21	32	1.88
592130--592459	52	6.3	53	69	12	178	32	13	24	29	1.93
594831--594856	13	2.0	13	100	0	52	38	15	15	30	1.88
594810--594875	33	2.0	33	87	0	96	42	16	15	25	1.87
594896--594948	17	2.9	18	80	8	63	37	15	9	37	1.79
594984--595041	21	2.7	22	81	7	75	32	15	15	36	1.89
596341--596379	14	2.8	14	92	0	60	56	35	5	2	1.35
597513--597651	50	2.8	51	85	6	178	41	13	17	28	1.87
598379--598902	61	8.5	61	88	4	630	28	19	26	25	1.99
598378--598865	249	2.0	247	87	3	712	28	19	26	25	1.98

Tables:   1   2   3   4   5   6